RetrogeneDB ID: retro_mluc_1270

Retrocopy location

• Organism: Microbat (Myotis lucifugus)
• Coordinates: GL429812:1610212..1610589(+)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSMLUG00000024653
• Aliases: None
• Status: KNOWN_PSEUDOGENE

Parental gene information

• Parental gene symbol: PGAM5
• Ensembl ID: ENSMLUG00000013646
• Aliases: None
• Description: None

Sequence

>retro_mluc_1270
CTCCCAGGTGTCTCCATGGTCAGCACCGACCTGCTGAGGAAAGGCGCCCCCATCGAGCCTGACCCGCCCGAGTCTCACTG
GAAGCCGAAGCGGTGCAGTATTATGCAGACGGAGCCAGGATCCAGGCCGCCTTCCGGAACTACATCCACCGGGCAGATGC
CAAGCAGCAGCAGGACAGTTACGAGATCTTCCTATGCCACGCCAACGTCACCCGCTACATCGTGTGCAGGGCGCTGCAGT
TCCCTCCAGAAGGCTGGCTCCGCCTCTCCCTCCACAATGGCAGCATCACCCACCTGGTGGTCCGGCCTGGCGGCTGCGTG
GCACTCACGGCCCTCGGGGACACAGGGTTCATGTCTCCGGACAGGATCTCCCGCTCC

Alignment

ORF - retro_mluc_1270 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 88.19 %
• Parental protein coverage: 53.16 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  LPGVSTVSTDLLREGAPIEPDPPVSHWKP-EAVQYYEDGARIEAAFRNYIHRADVKQQEDSYEIFICHAN
          LPGVS.VSTDLLR.GAPIEPDPP.SHWKP.EAVQYY.DGARI.AAFRNYIHRAD.KQQ.DSYEIF.CHAN
Retrocopy LPGVSMVSTDLLRKGAPIEPDPPESHWKP<EAVQYYADGARIQAAFRNYIHRADAKQQQDSYEIFLCHAN

Parental  VIRYIVCRALQFPPEGWLRLSLNNGSITHLVVRPDGCVALRALGDTGFMPPDKISRS
          V.RYIVCRALQFPPEGWLRLSL.NGSITHLVVRP.GCVAL.ALGDTGFM.PD.ISRS
Retrocopy VTRYIVCRALQFPPEGWLRLSLHNGSITHLVVRPGGCVALTALGDTGFMSPDRISRS

Legend:

• *: Stop codon
• >: Forward frameshift by one nucleotide
• <: Reverse frameshift by one nucleotide

Expression

RNA-Seq

Myotis lucifugus was not studied using RNA-Seq expression data.

ChIP-Seq

Myotis lucifugus was not studied using ChIP-Seq data.

EST

Myotis lucifugus was not studied using EST data.

TSS

Myotis lucifugus was not studied using FANTOM5 data.

Lab

retro_mluc_1270 was not experimentally validated.

Homology

Retrocopy orthology:

Myotis lucifugus does not belong to any of the species groups (eutheria, teleost or neognath), studied for retrocopy-based homology. For more information about studied groups, please go to help section.

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Parental genes homology:

Parental genes homology involve 11 parental genes, and 14 retrocopies.

Species	Parental gene accession	Retrocopies number
Ailuropoda melanoleuca	ENSAMEG00000013437	2 retrocopies	retro_amel_1052, retro_amel_173,
Choloepus hoffmanni	ENSCHOG00000011867	2 retrocopies	retro_chof_1762, retro_chof_2590,
Felis catus	ENSFCAG00000002503	2 retrocopies	retro_fcat_800, retro_fcat_960,
Homo sapiens	ENSG00000247077	1 retrocopy	retro_hsap_3363,
Myotis lucifugus	ENSMLUG00000013646	1 retrocopy	retro_mluc_1270 ,
Macaca mulatta	ENSMMUG00000015466	1 retrocopy	retro_mmul_2101,
Mustela putorius furo	ENSMPUG00000002639	1 retrocopy	retro_mputfur_684,
Pan troglodytes	ENSPTRG00000005657	1 retrocopy	retro_ptro_2286,
Rattus norvegicus	ENSRNOG00000037443	1 retrocopy	retro_rnor_1597,
Sus scrofa	ENSSSCG00000026764	1 retrocopy	retro_sscr_821,
Tursiops truncatus	ENSTTRG00000010653	1 retrocopy	retro_ttru_208,